aprasad's phylogenetics [at least 200 articles] Export

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	Phylogenetic analysis of 73 060 taxa corroborates major eukaryotic groups [My Copy] Cladistics, Vol. 25, No. 3. (2009), pp. 211-230. by Pablo A. Goloboff, Santiago A. Catalano, J. Marcos Mirande, et al.Claudia A. Szumik, J. Salvador Arias, Mari Källersjö, James S. Farris posted to tree supertree supermatrix phylogenomics phylogenetics by aprasad on 2009-11-20 20:43:07 as
	Genome 10K: A Proposal to Obtain Whole-Genome Sequence for 10 000 Vertebrate Species [My Copy] J Hered, Vol. 100, No. 6. (1 November 2009), pp. 659-674. by Genome 10K Community of Scientists posted to phylogenetics genomics by aprasad on 2009-11-06 19:20:25 as along with 3 people seb1 coela kiekyon
	Fitting the Gene Lineage into its Species Lineage, a Parsimony Strategy Illustrated by Cladograms Constructed from Globin Sequences [My Copy] Systematic Zoology, Vol. 28, No. 2. (1979), pp. 132-163. by Morris Goodman, John Czelusniak, G. William Moore, A. E. Romero Herrera, Genji Matsuda posted to phylogenetics parsimony congruence by aprasad on 2009-10-29 18:27:54 as
	Mitochondrial Insertions into Primate Nuclear Genomes Suggest the Use of numts as a Tool for Phylogeny [My Copy] Mol Biol Evol, Vol. 26, No. 10. (1 October 2009), pp. 2175-2179. by Einat Hazkani-Covo posted to rare_genomic_characters phylogenetics numts by aprasad on 2009-10-27 22:49:53 as
	Phylogenomics: evolution and genomics intersection. [My Copy] International journal of bioinformatics research and applications, Vol. 5, No. 5. (2009), pp. 548-563. by Virendra S. Gomase, Somnath Tagore posted to review phylogenomics phylogenetics by aprasad on 2009-10-15 21:34:55 as
	Networks, Trees, and Treeshrews: Assessing Support and Identifying Conflict with Multiple Loci and a Problematic Root [My Copy] Syst Biol (16 June 2009), syp025. by Trina E. Roberts, Eric J. Sargis, Link E. Olson posted to tree_shrew tree primate phylogenetics model_choice by aprasad on 2009-09-21 22:22:12 as
	Retroposons: Genetic Footprints on the Evolutionary Paths of Life [My Copy] Phylogenomics (2008), pp. 201-225. by Hidenori Nishihara, Norihiro Okada posted to transposon review phylogenetics evolution by aprasad on 2009-09-18 17:12:20 as
	Phylogenetic inference under varying proportions of indel-induced alignment gaps. [My Copy] BMC evolutionary biology, Vol. 9, No. 1. (23 August 2009), 211. by Bhakti Dwivedi, Sudhindra R. Gadagkar posted to simulation phylogenetics indel gaps alignment_error by aprasad on 2009-09-02 19:42:51 as along with 1 person and 1 group ppgardne Journal picks
	Phylogeny of the Ferungulata (Mammalia: Laurasiatheria) as determined from phylogenomic data. [My Copy] Molecular phylogenetics and evolution, Vol. 52, No. 3. (10 September 2009), pp. 660-664. by Zhuo-Cheng C. Hou, Roberto Romero, Derek E. Wildman posted to whole_genome tree phylogenomics phylogenetics mammal laurasiatheria coding by aprasad on 2009-09-02 19:24:58 as along with 1 person and 1 group avilella Ensembl Compara citations
	Rapid Evaluation of the Phylogenetic Congruence of Sequence Data Using Likelihood Ratio Tests [My Copy] Mol Biol Evol, Vol. 17, No. 12. (1 December 2000), pp. 1988-1992. by Peter J. Waddell, Hirohisa Kishino, Rissa Ota posted to phylogenetics partitioning lrt likelihood congruence by aprasad on 2009-08-22 19:51:23 as
	trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 15. (1 August 2009), pp. 1972-1973. by Salvador Capella-Gutiérrez, José M. Silla-Martínez, Toni Gabaldón posted to alignment alignment_error methods phylogenetics tools by aprasad on 2009-08-10 15:09:34 as along with 3 people and 1 group gjuggler ollieredfernwork nuin Orengo Group Journal Picks
	Improving phylogenetic analyses by incorporating additional information from genetic sequence databases [My Copy] Bioinformatics, Vol. 25, No. 19. (1 October 2009), pp. 2530-2536. by Li-Jung Liang, Robert E. Weiss, Benjamin Redelings, Marc A. Suchard posted to bayesian methods phylogenetics by aprasad on 2009-08-10 12:54:01 as along with 4 people operon nuin robfsouza gjuggler
	A fully resolved genus level phylogeny of neotropical primates (Platyrrhini). [My Copy] Molecular phylogenetics and evolution (23 July 2009) by Derek E. Wildman, Natalie M. Jameson, Juan C. Opazo, Soojin V. Yi posted to phylogenetics platyrrhini primate tree by aprasad on 2009-07-30 14:41:40 as
	Dealing with incongruence in phylogenomic analyses. [My Copy] Philosophical transactions of the Royal Society of London. Series B, Biological sciences, Vol. 363, No. 1512. (27 December 2008), pp. 4023-4029. by Nicolas Galtier, Vincent Daubin posted to bacteria congruence congruence_landscapes phylogenetics review by aprasad on 2009-07-06 17:37:19 as along with 4 people operon sconlan skembel treangen
	Bayesian Estimation of Concordance among Gene Trees [My Copy] Mol Biol Evol, Vol. 24, No. 2. (1 February 2007), pp. 412-426. by Cecile Ane, Bret Larget, David A. Baum, Stacey D. Smith, Antonis Rokas posted to congruence gene_geneology methods phylogenetics by aprasad on 2009-06-27 01:55:39 as along with 3 people dplachet operon lizbiogen
	STEM: species tree estimation using maximum likelihood for gene trees under coalescence [My Copy] Bioinformatics, Vol. 25, No. 7. (1 April 2009), pp. 971-973. by Laura S. Kubatko, Bryan C. Carstens, Lacey L. Knowles posted to congruence gene_geneology likelihood methods phylogenetics tools by aprasad on 2009-06-27 01:51:28 as along with 4 people lizbiogen nuin druvus djkt
	Are you my mother? Bayesian phylogenetic inference of recombination among putative parental strains. [My Copy] Applied bioinformatics, Vol. 2, No. 3. (2003), pp. 131-144. by J. S. Sinsheimer, M. A. Suchard, K. S. Dorman, F. Fang, R. E. Weiss posted to bayesian congruence_landscapes phylogenetics review by aprasad on 2009-06-26 17:47:02 as along with 1 person katholt
	Phylogenetic MCMC algorithms are misleading on mixtures of trees. [My Copy] Science (New York, N.Y.), Vol. 309, No. 5744. (30 September 2005), pp. 2207-2209. by E. Mossel, E. Vigoda posted to bayesian methods phylogenetic_signal phylogenetics by aprasad on 2009-06-26 17:42:49 as along with 2 people and 1 group sameersoi rvosa FAB-lab
	Bayesian estimation of concordance among gene trees. [My Copy] Mol Biol Evol, Vol. 24, No. 2. (February 2007), pp. 412-426. by C. Ané, B. Larget, D. A. Baum, S. D. Smith, A. Rokas posted to bayesian congruence gene_tree joint phylogenetics by aprasad on 2009-06-26 17:39:06 as along with 2 people and 1 group dpollard AaronDarling EisenLab
	PhyloGibbs: a Gibbs sampling motif finder that incorporates phylogeny. [My Copy] PLoS computational biology, Vol. 1, No. 7. (December 2005) by R. Siddharthan, E. D. Siggia, E. van Nimwegen posted to bayesian motif phylogenetics tfbs by aprasad on 2009-06-26 17:37:12 as along with 17 people and 3 groups farhat wowalz cajunsushi treangen druvus ana postrational dquest AaronDarling nickluscombe noano adsmitty lusk lilou idonaldson yevishere isimpson structural_bioinformatics Bioinformatics EBI-regulation
	SlidingBayes: exploring recombination using a sliding window approach based on Bayesian phylogenetic inference [My Copy] Bioinformatics, Vol. 21, No. 7. (01 April 2005), pp. 1274-1275. by D. Paraskevis, K. Deforche, P. Lemey, G. Magiorkinis, A. Hatzakis, A. M. Vandamme posted to bayesian congruence_landscapes methods phylogenetics tools by aprasad on 2009-06-26 17:27:31 as
	Phylogenetic inference under recombination using Bayesian stochastic topology selection. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 2. (15 January 2009), pp. 197-203. by Alex Webb, John M. Hancock, Chris C. Holmes posted to bayesian congruence_landscapes methods phylogenetics by aprasad on 2009-06-26 17:11:22 as along with 2 people sameersoi bertrandservin
	Gene tree discordance, phylogenetic inference and the multispecies coalescent. [My Copy] Trends in ecology & evolution (Personal edition), Vol. 24, No. 6. (21 March 2009), pp. 332-340. by James H. Degnan, Noah A. Rosenberg posted to coalescent congruence phylogenetics by aprasad on 2009-06-26 17:03:27 as along with 4 people parnell sameersoi druvus skembel
	Phylogenetic profiles: a graphical method for detecting genetic recombinations in homologous sequences [My Copy] Mol Biol Evol, Vol. 15, No. 3. (1 March 1998), pp. 326-335. by G. F. Weiller posted to congruence congruence_landscapes phylogenetics by aprasad on 2009-06-26 16:35:28 as
	Joint Bayesian estimation of alignment and phylogeny. [My Copy] Systematic biology, Vol. 54, No. 3. (June 2005), pp. 401-418. by Benjamin Redelings, Marc Suchard posted to bayesian joint methods phylogenetics simultaneous_inference by aprasad on 2009-06-24 23:05:10 as along with 3 people cmzmasek timflutre AaronDarling
	Multiple Sequence Alignment in Phylogenetic Analysis [My Copy] Molecular Phylogenetics and Evolution, Vol. 16, No. 3. (September 2000), pp. 317-330. by A. Phillips, D. Janies, W. Wheeler posted to alignment methods phylogenetics simultaneous_inference by aprasad on 2009-06-24 22:10:41 as along with 4 people operon nuin ziquje stormybriggs
	Simultaneous phylogeny reconstruction and multiple sequence alignment [My Copy] BMC Bioinformatics, Vol. 10, No. Suppl 1. (2009), S11. by Feng Yue, Jian Shi, Jijun Tang posted to alignment phylogenetics simultaneous_inference tools by aprasad on 2009-06-24 22:07:55 as along with 1 person cmzmasek
	Numerical Methods for Inferring Evolutionary Trees [My Copy] The Quarterly Review of Biology, Vol. 57, No. 4. (1982), pp. 379-404. by Joseph Felsenstein posted to parsimony phylogenetics review by aprasad on 2009-06-24 02:37:56 as
	The role of phylogenetics in comparative genetics. [My Copy] Plant physiology, Vol. 132, No. 4. (August 2003), pp. 1790-1800. by D. E. Soltis, P. S. Soltis posted to comparative_genomics phylogenetics plants review by aprasad on 2009-06-24 02:35:46 as
	Rapid and Accurate Large-Scale Coestimation of Sequence Alignments and Phylogenetic Trees [My Copy] Science, Vol. 324, No. 5934. (19 June 2009), pp. 1561-1564. by Kevin Liu, Sindhu Raghavan, Serita Nelesen, Randal C. Linder, Tandy Warnow posted to alignment joint methods phylogenetics tools by aprasad on 2009-06-22 21:56:14 as along with 26 people and 4 groups gjuggler parnell kinestetika robertrentzsch xianjun gdb jbhiatt stajich operon biomcgary kieran101 zwang michaelbarton vingron tatman303 hryk lizbiogen pkonings ppgardne dokky timflutre inquil TRHvidsten djkt fenghezi phoenixzxl Orengo Group Journal Picks Mycology Journal picks iSEEM
	Inferring pattern and process: maximum-likelihood implementation of a nonhomogeneous model of DNA sequence evolution for phylogenetic analysis [My Copy] Mol Biol Evol, Vol. 15, No. 7. (1 July 1998), pp. 871-879. by N. Galtier, M. Gouy posted to base_composition methods model phylogenetics by aprasad on 2009-06-22 04:43:05 as along with 2 people yonatanf cjeans
	Ribosomal RNA trees misleading? [My Copy] Nature, Vol. 361, No. 6407. (7 January 1993), pp. 23-23. by Masami Hasegawa, Tetsuo Hashimoto posted to base_composition methods phylogenetics by aprasad on 2009-06-22 04:39:25 as
	Mosaic retroposon insertion patterns in placental mammals. [My Copy] Genome research, Vol. 19, No. 5. (4 May 2009), pp. 868-875. by G. Churakov, J. O. Kriegs, R. Baertsch, A. Zemann, J. Brosius, J. Schmitz posted to mammal phylogenetics placental rare_genomic_characters transposon tree by aprasad on 2009-06-17 22:02:47 as along with 1 person provero
	Suppression of long-branch attraction artefacts in the animal phylogeny using a site-heterogeneous model [My Copy] BMC Evolutionary Biology, Vol. 7, No. Suppl 1. (2007) by Nicolas Lartillot, Henner Brinkmann, Herve Philippe posted to methods model_choice phylogenetic_accuracy phylogenetics phylogenomics by aprasad on 2009-06-17 21:23:41 as along with 1 person akifumi
	Parallel Metropolis coupled Markov chain Monte Carlo for Bayesian phylogenetic inference [My Copy] Bioinformatics, Vol. 20, No. 3. (12 February 2004), pp. 407-415. by Gautam Altekar, Sandhya Dwarkadas, John P. Huelsenbeck, Fredrik Ronquist posted to bayesian mrbayes phylogenetics tools by aprasad on 2009-06-15 21:47:55 as along with 1 person rvosa
	MrBayes 3: Bayesian phylogenetic inference under mixed models [My Copy] Bioinformatics, Vol. 19, No. 12. (12 August 2003), pp. 1572-1574. by F. Ronquist, J. P. Huelsenbeck posted to bayesian mrbayes phylogenetics tools by aprasad on 2009-06-15 21:45:47 as along with 7 people and 2 groups gwallau renewang alexeid chrn rvosa spavey AaronDarling LabDros FAB-lab
	Bayesian Inference of Phylogeny and Its Impact on Evolutionary Biology [My Copy] Science, Vol. 294, No. 5550. (14 December 2001), pp. 2310-2314. by John P. Huelsenbeck, Fredrik Ronquist, Rasmus Nielsen, Jonathan P. Bollback posted to bayesian methods mrbayes phylogenetics tools by aprasad on 2009-06-15 21:42:38 as along with 9 people and 1 group operon nuin seanyuan madhurjyag renewang bourscheid eustatic tny spavey FAB-lab
	Basing population genetic inferences and models of molecular evolution upon desired stationary distributions of DNA or protein sequences [My Copy] Philosophical Transactions of the Royal Society B: Biological Sciences, Vol. 363, No. 1512. (27 December 2008), pp. 3931-3939. by S. C. Choi, B. D. Redelings, J. L. Thorne posted to evolution model model_choice molecular_evolution phylogenetics population_genetics by aprasad on 2009-06-12 16:18:08 as along with 1 person operon
	Potential applications and pitfalls of Bayesian inference of phylogeny. [My Copy] Systematic biology, Vol. 51, No. 5. (October 2002), pp. 673-688. by J. P. Huelsenbeck, B. Larget, R. E. Miller, F. Ronquist posted to bayesian phylogenetics review by aprasad on 2009-06-10 20:36:39 as along with 1 person operon
	Some Probabilistic and Statistical Problems in the Analysis of DNA Sequences [My Copy] In American Mathematical Society: Lectures on Mathematics in the Life Sciences, Vol. 17 (1986), pp. 57-86. by S. Tavaré posted to methods model molecular_evolution phylogenetics by aprasad on 2009-06-10 19:53:22 as
	Dating of the human-ape splitting by a molecular clock of mitochondrial DNA. [My Copy] J Mol Evol, Vol. 22, No. 2. (1985), pp. 160-174. by M. Hasegawa, H. Kishino, T. Yano posted to evolution hky85 model molecular_evolution phylogenetics substitution_rate by aprasad on 2009-06-10 19:29:57 as along with 4 people alexeid AaronDarling Natasha lusk
	Invariants of phylogenies in a simple case with discrete states [My Copy] Journal of Classification, Vol. 4, No. 1. (1 March 1987), pp. 57-71. by James A. Cavender, Joseph Felsenstein posted to evolution model molecular_evolution phylogenetics ry_coding by aprasad on 2009-06-10 16:32:53 as
	Inferring Phylogenies [My Copy] (04 September 2003) by Joseph Felsenstein posted to book evolution phylogenetics review by aprasad on 2009-06-10 16:06:15 as along with 10 people and 2 groups vtraag nuttpo ilyashl rw294 gjuggler bayesian dpollard cmm farhat dlizcano EisenLab FAB-lab
	Fundamentals of Molecular Evolution [My Copy] (15 January 2000) by Dan Graur, Wen-Hsiung Li posted to book molecular_evolution phylogenetics review by aprasad on 2009-06-10 15:28:42 as along with 3 people nuttpo alefox balajis
	Molecular Evolution: A Phylogenetic Approach [My Copy] (15 January 1998) by Roderic D. M. Page, Edward C. Holmes posted to book evolution phylogenetics review by aprasad on 2009-06-10 15:03:05 as along with 3 people ilyashl renewang dullhunk
	Construction of phylogenetic trees: A method based on mutation distances as estimated from cytochrome c seqeunces is of general applicability [My Copy] Science, Vol. 155, No. 3760. (1967), pp. 279-284. by W. M. Fitch, E. Margoliash posted to branch_length methods phylogenetics tree by aprasad on 2009-06-09 23:59:57 as
	A Method for Deducing Branching Sequences in Phylogeny [My Copy] Evolution, Vol. 19, No. 3. (1965), pp. 311-326. by Joseph H. Camin, Robert R. Sokal posted to methods parsimony phylogenetics by aprasad on 2009-06-09 21:03:47 as
	Reconstruction of evolutionary trees [My Copy] In Phenetic and Phylogenetic Classification (1964), pp. 64-76. by A. W. F. Edwards, L. L. Cavalli-Sforza edited by V. H. Heywood, J. Mcneill posted to likelihood methods parsimony phylogenetics by aprasad on 2009-06-09 20:41:58 as
	Molecular Evolution and Phylogenetics [My Copy] (15 August 2000) by Masatoshi Nei, Sudhir Kumar posted to book evolution phylogenetics review by aprasad on 2009-06-09 16:43:20 as along with 3 people nuttpo ilyashl chiufanlee
	A Simple Method for Estimating and Testing Minimum-Evolution Trees [My Copy] Molecular biology and evolution, Vol. 9, No. 5. (1992), pp. 945-967. by Andrey Rzhetsky, Masatoshi Nei posted to me methods phylogenetics by aprasad on 2009-06-09 16:36:04 as

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phylogenetics	249
tree	119
evolution	109
methods	107
genome_size	88
mammal	71
review	71
tools	70
genome_evolution	54
indel	51
repeats	47
mutation_rate	45
comparative_genomics	44
phylogenomics	44
bat	43
selection	41
alignment	40
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genome	37
congruence	35
bayesian	33
whole_genome	32
cns	31
transposon	29
genomics	26
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primate	25
likelihood	24
coding	22
population_genetics	21
human	19
mutation	18
gc	17
rare_genomic_characters	17
sequence	17
algorithm	16
retrotransposon	16
substitution_rate	16
simulation	15
platyrrhini	13
congruence_landscapes	12
element	12
model	12
conservation	11
mitochondria	11
root_eutheria	11
time	11
bacteria	10
chimp	10
homo-pan-gorilla	10
isochore	10
jc	10
mcs	10
msa	10
nisc	10
parsimony	10
bac	9
functional	9
lineage_sorting	9
morphology	9
motif	9
plants	9
tfbs	9
theria	9
encode	8
flying_dna	8
horizontal_gene_transfer	8
long_branch_attraction	8
non-coding	8
phil	8
recombination	8
speciation	8
mouse	7
tree_visualization	7
book	6
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drosophila	6
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sox10	6
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hmm	5
map	5
methylation	5
molecular_evolution	5
monotreme	5
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ortholog	5
plant	5
promoter	5
rearrangement	5
theory	5
ultraconserved	5
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yeast	5
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alignment_error	4
analysis	4
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chip	4
chromatin	4
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exon	4
genome_paper	4
genomic	4
ild	4
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joint	4
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model_selection	4
murphy	4
neutral	4
overgo	4
placental	4
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supertree	4
ucsc	4
zooseq	4
bias	3
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development	3
dinosaur	3
dog	3
epigenetics	3
exactplus	3
functional_genomics	3
homoplasy	3
island	3
laurasiatheria	3
marsupionta	3
microinversions	3
mrbayes	3
partitioning	3
phylogenetic_signal	3
root	3
sequencing	3
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sine	3
skin	3
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aa	2
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browser	2
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comment	2
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est	2
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hox	2
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hybridization	2
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line	2
lrt	2
mammoth	2
medical_genetics	2
mexico	2
microrna	2
microsatellite	2
nags	2
non-phylogenetic_signal	2
outgroup	2
paleontology	2
paralog	2
phastcons	2
pipmaker	2
positive_selection	2
rat	2
raxml	2
reptile	2
rodent	2
saturation	2
sliding_window	2
software	2
structural_variation	2
tba	2
transfac	2
tree_comparison	2
454	1
alligator	1
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amphipod	1
ancestral_state	1
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antisense	1
arabadopsis	1
archaea	1
balancing_selection	1
bed	1
biofuel	1
block_bootstrap	1
bootsrap	1
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cambrian	1
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cat	1
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chip-chip	1
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faire	1
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finishing	1
fitness	1
fly	1
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gene_flow	1
genetic_code	1
genetic_disease	1
gene_tree	1
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hidden	1
histone	1
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hplc	1
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human_microbiome	1
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web	1
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whale	1
xenarthra	1

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